Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

55

Sequences:

350

Seq/Len:

6.36

HH_delta:

0.754 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

8_D

37_E

0.49743

2.897

6_E

45_R

0.44368

2.584

7_W

12_N

0.34306

1.998

15_D

18_E

0.31919

1.859

27_V

42_V

0.31438

1.831

8_D

28_W

0.3105

1.808

8_D

12_N

0.27749

1.616

45_R

51_G

0.27263

1.588

52_C

55_C

0.25099

1.462

7_W

19_V

0.24741

1.441

29_W

45_R

0.22837

1.330

8_D

11_K

0.22525

1.312

16_P

36_H

0.22159

1.290

26_K

39_K

0.20986

1.222

6_E

29_W

0.20192

1.176

22_G

51_G

0.20166

1.174

14_L

25_K

0.20139

1.173

8_D

30_K

0.19213

1.119

12_N

28_W

0.18915

1.102

28_W

37_E

0.17901

1.042

11_K

28_W

0.1739

1.013

28_W

39_K

0.17224

1.003

44_D

48_R

0.16879

0.983

6_E

32_P

0.16807

0.979

4_A

16_P

0.16692

0.972

26_K

53_P

0.16452

0.958

11_K

37_E

0.1628

0.948

3_L

6_E

0.16104

0.938

22_G

44_D

0.15668

0.912

32_P

37_E

0.15482

0.902

33_K

54_Y

0.15291

0.890

29_W

40_A

0.15211

0.886

40_A

45_R

0.15175

0.884

5_K

49_G

0.15088

0.879

28_W

32_P

0.14983

0.873

41_S

44_D

0.14969

0.872

6_E

38_W

0.14963

0.871

4_A

15_D

0.1471

0.857

25_K

28_W

0.14605

0.851

3_L

29_W

0.1456

0.848

44_D

50_K

0.14503

0.845

40_A

44_D

0.14221

0.828

20_T

48_R

0.13842

0.806

4_A

21_P

0.13658

0.795

26_K

38_W

0.13407

0.781

30_K

46_T

0.13265

0.773

16_P

25_K

0.13215

0.770

6_E

40_A

0.13164

0.767

7_W

27_V

0.13115

0.764

24_N

40_A

0.12985

0.756

46_T

51_G

0.12958

0.755

32_P

54_Y

0.12892

0.751

23_S

40_A

0.12798

0.745

4_A

12_N

0.12716

0.741

7_W

39_K

0.12703

0.740

22_G

46_T

0.12582

0.733

30_K

35_G

0.12561

0.732

22_G

43_N

0.12546

0.731

26_K

44_D

0.1231

0.717

22_G

50_K

0.12237

0.713

23_S

46_T

0.1212

0.706

24_N

43_N

0.11936

0.695

38_W

51_G

0.11914

0.694

19_V

23_S

0.11904

0.693

11_K

15_D

0.11893

0.693

11_K

21_P

0.11749

0.684

11_K

39_K

0.11611

0.676

21_P

41_S

0.11498

0.670

5_K

13_K

0.11336

0.660

18_E

24_N

0.11259

0.656

32_P

35_G

0.11241

0.655

4_A

18_E

0.11136

0.649

5_K

22_G

0.11116

0.647

5_K

14_L

0.11047

0.643

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)